Somatic
Show all
Sort by recent activity
-
FilterMutectCalls 'haplotype' filter value assigned to variants with different PGT tag Answered0 votes 9 comments
-
ModelSegments not reading allelic counts file Answered0 votes 1 comment
-
Error "Could not create tar.gz file" for Mutect2 --f1r2-tar-gz0 votes 3 comments
-
Empty final PON vcf file from 7 samples0 votes 17 comments
-
ModelSegments - java.lang.IllegalArgumentException: Metadata of the allelic counts and the segments do not match Answered0 votes 3 comments
-
Error in building panel of normal in somatic copy number variation calling Answered0 votes 4 comments
-
In Mutect2 force-calling allele via --alleles does not force-call the allele Answered0 votes 14 comments
-
Contig chr1_KQ031383v1_fix not present in the sequence dictionary Answered0 votes 5 comments
-
How to create Panel of Normals?0 votes 7 comments
-
A USER ERROR has occurred: Duplicate sample: PD4086bv2. Sample was found in both file Answered0 votes 7 comments
-
Problems in subsampling reads for Mutect2 with --max-reads-per-alignment-start Answered1 vote 13 comments
-
FilterMutectCalls, --distance-on-haplotype and variants filtered for haplotype Answered0 votes 9 comments
-
GenomicsDBImport error: USER ERROR has occurred: Duplicate sample: 1. Sample was found in both file: Completed0 votes 9 comments
-
Read-orientation filter removes tens of thousands of somatic variants after FilterMutectCalls Answered0 votes 6 comments
-
Mutect2 java.lang.NullPointerException Answered0 votes 7 comments
-
Mutect2 unexpected false negative due to changes in smith-waterman parameters? Answered0 votes 3 comments
-
Mutect2 Funcotator interval error Answered0 votes 5 comments
-
Baserecalibarator error: half of the files worked without any error Answered0 votes 1 comment
-
Mutect2 missing a low AF known deletion0 votes 4 comments
-
GenomicsDBImport: are all intervals being processed or is there an error? Answered0 votes 4 comments
-
Mutect2 issue with --force-active: not all regions are active Answered1 vote 25 comments
-
Broad hg19 TWIST interval list Answered1 vote 4 comments
-
mutect2.bam could not find the mutation, but bqsr found the mutation Answered0 votes 1 comment
-
GGA-mode gives PASS tag while the site failed in the normal workflow0 votes 13 comments
-
How to decrease the likelihood threshold for a candidate haplotype to be called as a genotype in Mutect2 Answered0 votes 9 comments
-
mutect2 genotyping wrong? Answered0 votes 1 comment
-
Mutect stats table not found.0 votes 1 comment
-
Error while running ModelSegments Answered0 votes 3 comments
-
Called Somatic Mutations High Frequency of C>A SNVs Answered0 votes 6 comments